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Method: Accurate assembly of circular RNAs with TERRACE
- Tasfia Zahin,
- Qian Shi,
- Xiaofei Carl Zang,
- and Mingfu Shao
Genome Res. September 2024 34: 1365-1370; Published in Advance July 26, 2024, doi:10.1101/gr.279106.124
...RWM, Tan KE, Lim YY, Tsang ACM, Lo KW, et al. 2021. Quantifying full-length circular RNAs in cancer. Genome Res 31: 2340–2353. doi:10.1101/gr.275348.121 ↵Zhang XO, Dong R, Zhang Y, Zhang JL, Luo Z, Zhang J, Chen LL, Yang L. 2016. Diverse alternative back-splicing and alternative splicing landscape...
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Method: Quantifying full-length circular RNAs in cancer
- Ken Hung-On Yu,
- Christina Huan Shi,
- Bo Wang,
- Savio Ho-Chit Chow,
- Grace Tin-Yun Chung,
- Raymond Wai-Ming Lung,
- Ke-En Tan,
- Yat-Yuen Lim,
- Anna Chi-Man Tsang,
- Kwok-Wai Lo,
- and Kevin Y. Yip
Genome Res. December 2021 31: 2340-2353; Published in Advance October 18, 2021, doi:10.1101/gr.275348.121
...equally to this work. Corresponding authors: kwlo@cuhk.edu.hk, kevinyip@cse.cuhk.edu.hkAbstractCircular RNAs (circRNAs) are abundantly expressed in cancer. Their resistance to exonucleases enables them to have potentially stable interactions with different types of biomolecules. Alternative splicing can...
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Review: Navigating the landscape of epitranscriptomics and host immunity
- Elaine Huang,
- Clara Frydman,
- and Xinshu Xiao
Genome Res. April 2024 34: 515-529; Published in Advance May 3, 2024, doi:10.1101/gr.278412.123
...are likely to mediate innate immune response upon m6A depletion.circRNAs are generated via a back-splicing circularization mechanism in which a downstream 5′ donor site of an exon is joined to an upstream 3′ acceptor site (Chen 2016). Multiple layers of coordination between circRNA production and innate...
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Research: ADAR-deficiency perturbs the global splicing landscape in mouse tissues
- Utkarsh Kapoor,
- Konstantin Licht,
- Fabian Amman,
- Tobias Jakobi,
- David Martin,
- Christoph Dieterich,
- and Michael F. Jantsch
Genome Res. August 2020 30: 1107-1118; Published in Advance July 29, 2020, doi:10.1101/gr.256933.119
...splicing via editing-dependent and editing-independent pathways.ADAR-mediated impact on splicing affects circular RNA biogenesisCircular RNAs (circRNAs) are formed by back-splicing of exons or introns, and their biogenesis is also mediated by the spliceosome (Memczak et al. 2013). ADAR has been implicated...
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Research: Genome-wide, integrative analysis of circular RNA dysregulation and the corresponding circular RNA-microRNA-mRNA regulatory axes in autism
- Yen-Ju Chen,
- Chia-Ying Chen,
- Te-Lun Mai,
- Chih-Fan Chuang,
- Yu-Chen Chen,
- Sachin Kumar Gupta,
- Laising Yen,
- Yi-Da Wang,
- and Trees-Juen Chuang
Genome Res. March 2020 30: 375-391; Published in Advance March 3, 2020, doi:10.1101/gr.255463.119
...of dysregulation of gene expression in ASD, remains largely unknown. Illuminating the underlying molecular mechanisms in the etiology of ASD awaits further investigation.Circular RNAs (circRNAs) are a class of long noncoding RNAs produced by pre-mRNA back-splicing, which generates a structure of covalently closed...
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Research: Systematic identification and characterization of exon–intron circRNAs
- Yinchun Zhong,
- Yan Yang,
- Xiaolin Wang,
- Bingbing Ren,
- Xueren Wang,
- Ge Shan,
- and Liang Chen
Genome Res. March 2024 34: 376-393; Published in Advance April 12, 2024, doi:10.1101/gr.278590.123
...by splicing-related mechanisms (Kristensen et al. 2019; Chen et al. 2022a). Two subclasses of circRNAs, exonic circRNAs (EcircRNAs) and exon–intron circRNAs (EIciRNAs) are generated by backsplicing, which is a form of noncanonical alternative splicing (AS) (Salzman et al. 2012; Li et al. 2015; Sibley et al...
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